28ac1d325e
Commit for Ryan
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4433 348d0f76-0448-11de-a6fe-93d51630548a
2010-10-05 19:04:10 +00:00
7639692e5b
Sigh. Fix the source of even more UserErrors in the phone home directory: make sure to gunzip the beagle files before passing them into the conversion walker...
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4399 348d0f76-0448-11de-a6fe-93d51630548a
2010-10-01 03:28:36 +00:00
f34b4c6b82
Be smarter if the beagle output is set such that getParent() returns null. Up the memory limit.
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4389 348d0f76-0448-11de-a6fe-93d51630548a
2010-09-30 12:48:47 +00:00
0142047da9
And a bugfix 3 seconds later. Don't tell java to use up to 20g while telling the farm to kill the job if it tries to exceed 4g.
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4388 348d0f76-0448-11de-a6fe-93d51630548a
2010-09-30 02:08:47 +00:00
06970ae039
A qscript that refines genotypes with beagle and merges them into one vcf (running currently on the recent chr20 production calls).
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This will be librarized soon; but if you need to do something like this, feel free to cannibalize.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4387 348d0f76-0448-11de-a6fe-93d51630548a
2010-09-30 02:05:30 +00:00
2708e83198
For show (Queue works nicely): An analysis script that runs QC for the omni chip
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4380 348d0f76-0448-11de-a6fe-93d51630548a
2010-09-29 15:04:17 +00:00
chartl